Thaps_bicluster_0279 Residual: 0.39
Thalassiosira pseudonana

Module Page Help

What is a module?

Regulatory units (modules) in the Network Portal are based on the network inference algorithm used. For the current version, modules are based on cMonkey modules and Inferelator regulatory influences on these modules. More specifically, module refers to set of genes that are conditionally co-regulated under subset of the conditions. Identification of modules integrates co-expression, de-novo motif identification, and other functional associations such as operon information and protein-protein interactions.

Expression Profiles

Expression profiles is a plot of the expression ratios (log10) of the module's genes, over all subset of the conditions included in the module. The X-axis represent conditions and the Y-axis represents log10 expression ratios. Each gene is plotted as line plot with different colors. Colored legend for the lines are presented under the plot. This plot is dynamic. Clicking on the gene names in the legend will show/hide the plot for that particular gene. A tooltip will show expression ratio information if you mouseover the lines in the plot.

Motif Locations

Location of the Identified motifs for the module in the upstream regions of the member genes are shown under the expression profiles plot. This plot shows the diagram of the upstream positions of the motifs, colored red and green for motifs #1, and 2, respectively. Intensity of the color is proportional to the significance of the occurence of that motif at a given location. Motifs on the forward and reverse strand are represented over and under the line respectively.

Regulators

For each module, single or AND logic connected regulatory influences are listed under the regulators tab. These regulatory influences are identified by Inferelator. Table shows name of the regulator and its type. tf: Transcription factor, ef: Environmental factor and combiner:Combinatorial influence of a tf or an ef through logic gate. Tabel is sortable by clicking on the arrows next to column headers.

Motifs

Transcription factor binding motifs help to elucidate regulatory mechanism. cMonkey integrates powerful de novo motif detection to identify conditionally co-regulated sets of genes. De novo predicted motifs for each module are listed in the module page as motif logo images along with associated prediction statistics (e-values). The main module page also shows the location of these motifs within the upstream sequences of the module member genes.
Title Residual Model version Organism
Thaps_bicluster_0279 0.39 Thalassiosira pseudonana
Displaying 1 - 36 of 36
11220 eIF2A

11220 - eIF2A

GO Terms:

NA

CD Domains:

Go To Gene Page:

11220
1432 hypothetical protein

1432 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

1432
15950 Peptidase_A22B superfamily

15950 - Peptidase_A22B superfamily

GO Terms:

GO:0016021, GO:0008717, GO:0004244

CD Domains:

Go To Gene Page:

15950
20601 Lactamase_B superfamily

20601 - Lactamase_B superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

20601
20621 hypothetical protein

20621 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

20621
21258 DUF3523

21258 - DUF3523

GO Terms:

GO:0000166, GO:0017111, GO:0005524, GO:0016817

CD Domains:

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21258
21710 Pho88 superfamily

21710 - Pho88 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

21710
22011 PqqL

22011 - PqqL

GO Terms:

GO:0004222, GO:0006508, GO:0004240, GO:0017087

CD Domains:

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22011
22293 PLN00178

22293 - PLN00178

GO Terms:

GO:0006118, GO:0050311

CD Domains:

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22293
22770 PLN02908

22770 - PLN02908

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0004829, GO:0006435, GO:0006412

CD Domains:

Go To Gene Page:

22770
23527 hypothetical protein

23527 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

23527
23655 hypothetical protein

23655 - hypothetical protein

GO Terms:

GO:0005198, GO:0005874, GO:0007018, GO:0005759

CD Domains:

Go To Gene Page:

23655
26031 SHMT

26031 - SHMT

GO Terms:

GO:0004372, GO:0006544, GO:0006563

CD Domains:

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26031
261750 GckA

261750 - GckA

GO Terms:

NA

CD Domains:

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261750
262136 Tim44 superfamily

262136 - Tim44 superfamily

GO Terms:

GO:0005744, GO:0006886, GO:0015450

CD Domains:

Go To Gene Page:

262136
262540 COG0523

262540 - COG0523

GO Terms:

NA

CD Domains:

Go To Gene Page:

262540
262630 dnaj-like protein

262630 - dnaj-like protein

GO Terms:

GO:0006457, GO:0031072, GO:0051082

CD Domains:

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262630
264295 PP2Cc

264295 - PP2Cc

GO Terms:

GO:0003824

CD Domains:

Go To Gene Page:

264295
264365 PRK08661

264365 - PRK08661

GO Terms:

GO:0004812, GO:0005524, GO:0006418, GO:0004827, GO:0006433, GO:0006412, GO:0005737

CD Domains:

Go To Gene Page:

264365
269240 (dnaK) dnaK

269240 - (dnaK) dnaK

GO Terms:

GO:0005524

CD Domains:

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269240
269662 Peptidase_M14_like superfamily

269662 - Peptidase_M14_like superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

269662
270365 hypothetical protein

270365 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

270365
28682 TCP1_theta

28682 - TCP1_theta

GO Terms:

GO:0005515, GO:0005524, GO:0044267, GO:0003763

CD Domains:

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28682
31810 pyruv_kin

31810 - pyruv_kin

GO Terms:

GO:0004743, GO:0006096

CD Domains:

Go To Gene Page:

31810
32140 DHDPS

32140 - DHDPS

GO Terms:

GO:0008840

CD Domains:

Go To Gene Page:

32140
35049 PRK07411

35049 - PRK07411

GO Terms:

GO:0003824, GO:0004842

CD Domains:

Go To Gene Page:

35049
40233 (Tp_CSF3) CSP_CDS

40233 - (Tp_CSF3) CSP_CDS

GO Terms:

GO:0003677, GO:0006355, GO:0003676

CD Domains:

Go To Gene Page:

40233
40771 (ENO2) PLN00191

40771 - (ENO2) PLN00191

GO Terms:

GO:0000015, GO:0004634, GO:0006096

CD Domains:

Go To Gene Page:

40771
4111 TENA_THI-4 superfamily

4111 - TENA_THI-4 superfamily

GO Terms:

NA

CD Domains:

Go To Gene Page:

4111
42612 pdxS

42612 - pdxS

GO Terms:

GO:0005554, GO:0016829, GO:0051339

CD Domains:

Go To Gene Page:

42612
42704 (LEU2) IPMI

42704 - (LEU2) IPMI

GO Terms:

GO:0008152, GO:0016836, GO:0016829, GO:0003861, GO:0009098, GO:0009316

CD Domains:

Go To Gene Page:

42704
4487 hypothetical protein

4487 - hypothetical protein

GO Terms:

NA

CD Domains:

Go To Gene Page:

4487
6389 PDCD2_C superfamily

6389 - PDCD2_C superfamily

GO Terms:

GO:0005737, GO:0006915

CD Domains:

Go To Gene Page:

6389
7558 DUF525 superfamily

7558 - DUF525 superfamily

GO Terms:

GO:0005509

CD Domains:

Go To Gene Page:

7558
7714 DUF1014

7714 - DUF1014

GO Terms:

NA

CD Domains:

Go To Gene Page:

7714
9705 DUF2431 superfamily

9705 - DUF2431 superfamily

GO Terms:

GO:0005215, GO:0006810, GO:0016020

CD Domains:

Go To Gene Page:

9705
GO ID Go Term p-value q-value Cluster
GO:0006433 prolyl-tRNA aminoacylation 0.00454827 1 Thaps_bicluster_0279
GO:0051339 regulation of lyase activity 0.00454827 1 Thaps_bicluster_0279
GO:0006435 threonyl-tRNA aminoacylation 0.0090768 1 Thaps_bicluster_0279
GO:0006096 glycolysis 0.0119459 1 Thaps_bicluster_0279
GO:0006563 L-serine metabolism 0.0135857 1 Thaps_bicluster_0279
GO:0009098 leucine biosynthesis 0.0135857 1 Thaps_bicluster_0279
GO:0006915 apoptosis 0.0180749 1 Thaps_bicluster_0279
GO:0006544 glycine metabolism 0.0180749 1 Thaps_bicluster_0279
GO:0006418 tRNA aminoacylation for protein translation 0.0271022 1 Thaps_bicluster_0279
GO:0044267 cellular protein metabolism 0.061908 1 Thaps_bicluster_0279
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